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cavalab / ellyn

python-wrapped version of ellen, a linear genetic programming system for symbolic regression and classification.
http://cavalab.org/ellyn
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ModuleNotFoundError: No module named 'ellyn.elgp' #11

Closed renpoo closed 3 years ago

renpoo commented 3 years ago

Hi. I am a GP beginner. Thank you for sharing this kind of GP codes.

But I failed to install perfectly for "ellyn.glgp". After installation, python outputs the error message below.

(ellyn-env) renpoo@ubuntu:/mnt/hgfs/myWiki/Projects/ellyn$ python
Python 3.9.1 | packaged by conda-forge | (default, Dec 21 2020, 22:08:58) 
[GCC 9.3.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> from ellyn import ellyn
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/mnt/hgfs/myWiki/Projects/ellyn/ellyn/__init__.py", line 1, in <module>
    from .ellyn import ellyn
  File "/mnt/hgfs/myWiki/Projects/ellyn/ellyn/ellyn.py", line 21, in <module>
    import ellyn.elgp as elgp
ModuleNotFoundError: No module named 'ellyn.elgp'

My environment is

Could you tell me how to fix this? Thanks in advance.

lacava commented 3 years ago

hello, could you let me know the output when you ran python setup.py install in the root directory?

renpoo commented 3 years ago

Thank you for your reply. Is this enough information?

(ellyn-env) renpoo@ubuntu:/mnt/hgfs/myWiki/Projects/__GA_and_GP/ellyn$ python setup.py install
running install
running bdist_egg
running egg_info
writing ellyn.egg-info/PKG-INFO
writing dependency_links to ellyn.egg-info/dependency_links.txt
writing top-level names to ellyn.egg-info/top_level.txt
reading manifest file 'ellyn.egg-info/SOURCES.txt'
writing manifest file 'ellyn.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
running build_ext
creating build/bdist.linux-x86_64/egg
copying build/lib.linux-x86_64-3.9/.DS_Store -> build/bdist.linux-x86_64/egg
creating build/bdist.linux-x86_64/egg/ellyn
copying build/lib.linux-x86_64-3.9/ellyn/ellyn.py -> build/bdist.linux-x86_64/egg/ellyn
copying build/lib.linux-x86_64-3.9/ellyn/elgp.cpython-39-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/egg/ellyn
copying build/lib.linux-x86_64-3.9/ellyn/__init__.py -> build/bdist.linux-x86_64/egg/ellyn
byte-compiling build/bdist.linux-x86_64/egg/ellyn/ellyn.py to ellyn.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/ellyn/__init__.py to __init__.cpython-39.pyc
creating stub loader for ellyn/elgp.cpython-39-x86_64-linux-gnu.so
byte-compiling build/bdist.linux-x86_64/egg/ellyn/elgp.py to elgp.cpython-39.pyc
creating build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
writing build/bdist.linux-x86_64/egg/EGG-INFO/native_libs.txt
zip_safe flag not set; analyzing archive contents...
ellyn.__pycache__.elgp.cpython-39: module references __file__
creating 'dist/ellyn-0.1-py3.9-linux-x86_64.egg' and adding 'build/bdist.linux-x86_64/egg' to it
removing 'build/bdist.linux-x86_64/egg' (and everything under it)
Processing ellyn-0.1-py3.9-linux-x86_64.egg
removing '/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/ellyn-0.1-py3.9-linux-x86_64.egg' (and everything under it)
creating /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/ellyn-0.1-py3.9-linux-x86_64.egg
Extracting ellyn-0.1-py3.9-linux-x86_64.egg to /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages
ellyn 0.1 is already the active version in easy-install.pth

Installed /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/ellyn-0.1-py3.9-linux-x86_64.egg
Processing dependencies for ellyn==0.1
Finished processing dependencies for ellyn==0.1
lacava commented 3 years ago

would you mind sending the output of a fresh install? you could remove the build directory and run the command again. You should invoke the c++ compiler to build the SOURCES in setup.py, and this should get linked into elgp.so. That process may be failing.

renpoo commented 3 years ago

Hmmm, does this have enough information?

(base) renpoo@ubuntu:~$ conda activate ellyn-env
(ellyn-env) renpoo@ubuntu:~$ cd ~/Documents/myWiki/Projects/__GA_and_GP/ellyn/
(ellyn-env) renpoo@ubuntu:~/Documents/myWiki/Projects/__GA_and_GP/ellyn$ python setup.py install
running install
running bdist_egg
running egg_info
writing ellyn.egg-info/PKG-INFO
writing dependency_links to ellyn.egg-info/dependency_links.txt
writing top-level names to ellyn.egg-info/top_level.txt
reading manifest file 'ellyn.egg-info/SOURCES.txt'
writing manifest file 'ellyn.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
creating build/lib.linux-x86_64-3.9
creating build/lib.linux-x86_64-3.9/ellyn
copying ellyn/__init__.py -> build/lib.linux-x86_64-3.9/ellyn
copying ellyn/ellyn.py -> build/lib.linux-x86_64-3.9/ellyn
running build_ext
building 'ellyn.elgp' extension
creating build/temp.linux-x86_64-3.9
creating build/temp.linux-x86_64-3.9/ellyn
creating build/temp.linux-x86_64-3.9/ellyn/ellen
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/AgeBreed.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/AgeBreed.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/AgeBreed.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/AgeFitGenSurvival.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/AgeFitGenSurvival.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/AgeFitGenSurvival.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/AgeFitSurvival.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/AgeFitSurvival.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/AgeFitSurvival.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/ApplyGenetics.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/ApplyGenetics.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/ApplyGenetics.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/BruteforceAlgo.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/BruteforceAlgo.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/BruteforceAlgo.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Crossover.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Crossover.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Crossover.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/DC.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/DC.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/DC.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Datapoint.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Datapoint.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Datapoint.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/EpiHC.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/EpiHC.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/EpiHC.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/EpiMut.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/EpiMut.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/EpiMut.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Eqn2Line.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Eqn2Line.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Eqn2Line.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Fitness.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Fitness.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Fitness.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/FitnessEstimator.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/FitnessEstimator.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/FitnessEstimator.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Generation.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Generation.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Generation.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/HillClimb.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/HillClimb.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/HillClimb.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/InitPop.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/InitPop.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/InitPop.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
ellyn/ellen/InitPop.cpp: In function ‘void getChoice(int&, int, int, char, params&, std::vector<Randclass>&)’:
ellyn/ellen/InitPop.cpp:295:6: warning: ‘tmpchoice’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  295 |  int tmpchoice;
      |      ^~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/LexicaseSelect.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/LexicaseSelect.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/LexicaseSelect.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Line2Eqn.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Line2Eqn.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Line2Eqn.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Mutate.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Mutate.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Mutate.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/NondominatedsortAlgo.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/NondominatedsortAlgo.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/NondominatedsortAlgo.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/ParetoSurvival.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/ParetoSurvival.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/ParetoSurvival.cpp:2:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Prune.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Prune.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Prune.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/StablesortAlgo.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/StablesortAlgo.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/StablesortAlgo.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/StochasticGradient.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/StochasticGradient.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/StochasticGradient.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/Tournament.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/Tournament.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/Tournament.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/general_fns.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/general_fns.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/general_fns.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/pareto.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/pareto.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/pareto.cpp:4:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/pareto_fc.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/pareto_fc.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/pareto_fc.cpp:4:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/runEllenGP.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/runEllenGP.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822,
                 from /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
                 from ellyn/ellen/runEllenGP.cpp:45:
/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   17 | #warning "Using deprecated NumPy API, disable it with " \
      |  ^~~~~~~
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/runEllenGP.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/bind.hpp:36:1: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use <boost/bind/bind.hpp> + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.
   36 | BOOST_PRAGMA_MESSAGE(
      | ^~~~~~~~~~~~~~~~~~~~
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/detail/iterator.hpp:13:1: note: #pragma message: This header is deprecated. Use <iterator> instead.
   13 | BOOST_HEADER_DEPRECATED("<iterator>")
      | ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:21,
                 from ellyn/ellen/runEllenGP.cpp:45:
/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/numpy/__multiarray_api.h:1463:1: warning: ‘int _import_array()’ defined but not used [-Wunused-function]
 1463 | _import_array(void)
      | ^~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/stdafx.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/stdafx.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/stdafx.cpp:5:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -O2 -isystem /home/renpoo/anaconda3/envs/ellyn-env/include -fPIC -I/home/renpoo/anaconda3/envs/ellyn-env/include/eigen3 -I/home/renpoo/anaconda3/envs/ellyn-env/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/numpy/core/include/ -I/home/renpoo/anaconda3/envs/ellyn-env/include/python3.9 -c ellyn/ellen/strdist.cpp -o build/temp.linux-x86_64-3.9/ellyn/ellen/strdist.o -std=c++0x -fopenmp -Wno-sign-compare -Wno-unused-variable -Wno-unused-value
In file included from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/config/header_deprecated.hpp:18,
                 from /home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:20,
                 from ellyn/ellen/stdafx.h:15,
                 from ellyn/ellen/strdist.cpp:1:
/home/renpoo/anaconda3/envs/ellyn-env/include/boost/timer.hpp:21:1: note: #pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.
   21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
      | ^~~~~~~~~~~~~~~~~~~~~~~
g++ -pthread -B /home/renpoo/anaconda3/envs/ellyn-env/compiler_compat -Wl,--sysroot=/ -shared -Wl,-rpath,/home/renpoo/anaconda3/envs/ellyn-env/lib -Wl,-rpath-link,/home/renpoo/anaconda3/envs/ellyn-env/lib -L/home/renpoo/anaconda3/envs/ellyn-env/lib -Wl,-rpath,/home/renpoo/anaconda3/envs/ellyn-env/lib -Wl,-rpath-link,/home/renpoo/anaconda3/envs/ellyn-env/lib -L/home/renpoo/anaconda3/envs/ellyn-env/lib build/temp.linux-x86_64-3.9/ellyn/ellen/AgeBreed.o build/temp.linux-x86_64-3.9/ellyn/ellen/AgeFitGenSurvival.o build/temp.linux-x86_64-3.9/ellyn/ellen/AgeFitSurvival.o build/temp.linux-x86_64-3.9/ellyn/ellen/ApplyGenetics.o build/temp.linux-x86_64-3.9/ellyn/ellen/BruteforceAlgo.o build/temp.linux-x86_64-3.9/ellyn/ellen/Crossover.o build/temp.linux-x86_64-3.9/ellyn/ellen/DC.o build/temp.linux-x86_64-3.9/ellyn/ellen/Datapoint.o build/temp.linux-x86_64-3.9/ellyn/ellen/EpiHC.o build/temp.linux-x86_64-3.9/ellyn/ellen/EpiMut.o build/temp.linux-x86_64-3.9/ellyn/ellen/Eqn2Line.o build/temp.linux-x86_64-3.9/ellyn/ellen/Fitness.o build/temp.linux-x86_64-3.9/ellyn/ellen/FitnessEstimator.o build/temp.linux-x86_64-3.9/ellyn/ellen/Generation.o build/temp.linux-x86_64-3.9/ellyn/ellen/HillClimb.o build/temp.linux-x86_64-3.9/ellyn/ellen/InitPop.o build/temp.linux-x86_64-3.9/ellyn/ellen/LexicaseSelect.o build/temp.linux-x86_64-3.9/ellyn/ellen/Line2Eqn.o build/temp.linux-x86_64-3.9/ellyn/ellen/Mutate.o build/temp.linux-x86_64-3.9/ellyn/ellen/NondominatedsortAlgo.o build/temp.linux-x86_64-3.9/ellyn/ellen/ParetoSurvival.o build/temp.linux-x86_64-3.9/ellyn/ellen/Prune.o build/temp.linux-x86_64-3.9/ellyn/ellen/StablesortAlgo.o build/temp.linux-x86_64-3.9/ellyn/ellen/StochasticGradient.o build/temp.linux-x86_64-3.9/ellyn/ellen/Tournament.o build/temp.linux-x86_64-3.9/ellyn/ellen/general_fns.o build/temp.linux-x86_64-3.9/ellyn/ellen/pareto.o build/temp.linux-x86_64-3.9/ellyn/ellen/pareto_fc.o build/temp.linux-x86_64-3.9/ellyn/ellen/runEllenGP.o build/temp.linux-x86_64-3.9/ellyn/ellen/stdafx.o build/temp.linux-x86_64-3.9/ellyn/ellen/strdist.o -L/home/renpoo/anaconda3/envs/ellyn-env/lib -L-lpython3 -o build/lib.linux-x86_64-3.9/ellyn/elgp.cpython-39-x86_64-linux-gnu.so -lboost_python39 -lpython3 -fopenmp -Wl,-rpath,'/home/renpoo/anaconda3/envs/ellyn-env/lib/'
creating build/bdist.linux-x86_64
creating build/bdist.linux-x86_64/egg
creating build/bdist.linux-x86_64/egg/ellyn
copying build/lib.linux-x86_64-3.9/ellyn/ellyn.py -> build/bdist.linux-x86_64/egg/ellyn
copying build/lib.linux-x86_64-3.9/ellyn/elgp.cpython-39-x86_64-linux-gnu.so -> build/bdist.linux-x86_64/egg/ellyn
copying build/lib.linux-x86_64-3.9/ellyn/__init__.py -> build/bdist.linux-x86_64/egg/ellyn
byte-compiling build/bdist.linux-x86_64/egg/ellyn/ellyn.py to ellyn.cpython-39.pyc
byte-compiling build/bdist.linux-x86_64/egg/ellyn/__init__.py to __init__.cpython-39.pyc
creating stub loader for ellyn/elgp.cpython-39-x86_64-linux-gnu.so
byte-compiling build/bdist.linux-x86_64/egg/ellyn/elgp.py to elgp.cpython-39.pyc
creating build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/PKG-INFO -> build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/SOURCES.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/dependency_links.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
copying ellyn.egg-info/top_level.txt -> build/bdist.linux-x86_64/egg/EGG-INFO
writing build/bdist.linux-x86_64/egg/EGG-INFO/native_libs.txt
zip_safe flag not set; analyzing archive contents...
ellyn.__pycache__.elgp.cpython-39: module references __file__
creating dist
creating 'dist/ellyn-0.1-py3.9-linux-x86_64.egg' and adding 'build/bdist.linux-x86_64/egg' to it
removing 'build/bdist.linux-x86_64/egg' (and everything under it)
Processing ellyn-0.1-py3.9-linux-x86_64.egg
removing '/home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/ellyn-0.1-py3.9-linux-x86_64.egg' (and everything under it)
creating /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/ellyn-0.1-py3.9-linux-x86_64.egg
Extracting ellyn-0.1-py3.9-linux-x86_64.egg to /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages
ellyn 0.1 is already the active version in easy-install.pth

Installed /home/renpoo/anaconda3/envs/ellyn-env/lib/python3.9/site-packages/ellyn-0.1-py3.9-linux-x86_64.egg
Processing dependencies for ellyn==0.1
Finished processing dependencies for ellyn==0.1
(ellyn-env) renpoo@ubuntu:~/Documents/myWiki/Projects/__GA_and_GP/ellyn$
lacava commented 3 years ago

hello, thanks for this bug report. It looks like I introduced a bug when I updated setup.py in the last few commits. I had to do a fresh clone to reproduce this behavior. At any rate, it should be fixed now in the latest commit (https://github.com/EpistasisLab/ellyn/commit/35826ccf0ca1dbc055c8c123169a174ef08f43eb). Let me know if this fixes the issue for you.

renpoo commented 3 years ago

Thank to the author! It works!! I'll try ellyn in detail. Thank you.